Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 125 of 129
Found at i:22804342 original size:21 final size:21
Alignment explanation
Indices: 22804308--22804379 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 21
22804298 AAATGTATTT
22804308 TTTTATT-TAA-AATATTTAA
1 TTTTATTATAATAATATTTAA
*
22804327 TTTTATTATAATAATAATTAA
1 TTTTATTATAATAATATTTAA
* * *
22804348 TCTTATTATTATCATTATTTTTAA
1 --TT-TTATTATAATAATATTTAA
22804372 TTTTATTA
1 TTTTATTA
22804380 AAATCAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.16
20 3 0.07
21 14 0.33
22 2 0.05
23 2 0.05
24 15 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATTATAATAATATTTAA
Found at i:22804390 original size:21 final size:21
Alignment explanation
Indices: 22804322--22804391 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
22804312 ATTTAAAATA
22804322 TTTAATTTTATTATAAT-AAT
1 TTTAATTTTATTATAATCAAT
* * *
22804342 AATTAATCTTATTATTATCATTATT
1 -TTTAATTTTATTATAATCA--A-T
*
22804367 TTTAATTTTATTAAAATCAAT
1 TTTAATTTTATTATAATCAAT
22804388 TTTA
1 TTTA
22804392 TCACATATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
21 19 0.50
22 2 0.05
24 16 0.42
25 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATTTTATTATAATCAAT
Found at i:22804818 original size:18 final size:17
Alignment explanation
Indices: 22804795--22804836 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
22804785 TAATTCATCA
22804795 AATTTAAGTTT-AAATTT
1 AATTTAA-TTTGAAATTT
22804812 GAATTTAATTTGAAATTT
1 -AATTTAATTTGAAATTT
22804830 AATTTAA
1 AATTTAA
22804837 ATTCAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
AATTTAATTTGAAATTT
Found at i:22804998 original size:17 final size:17
Alignment explanation
Indices: 22804976--22805054 Score: 77
Period size: 19 Copynumber: 4.4 Consensus size: 17
22804966 TTAAATTCAA
**
22804976 AATTAAAATATTTTATT
1 AATTAAAATATTAAATT
22804993 AATTAAAATAATTAAATT
1 AATTAAAAT-ATTAAATT
*
22805011 ATATTAAAATATAAAGATTT
1 A-ATTAAAATATTAA-A-TT
*
22805031 AATTAAAATTTTAAATT
1 AATTAAAATATTAAATT
*
22805048 ATTTAAA
1 AATTAAA
22805055 TCAAATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
17 17 0.33
18 12 0.23
19 20 0.38
20 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (17 bp):
AATTAAAATATTAAATT
Found at i:22805495 original size:13 final size:12
Alignment explanation
Indices: 22805464--22805504 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
22805454 CGCCTCTCTC
*
22805464 ATAATTTAAAAT
1 ATAATATAAAAT
22805476 ATAATATAATAAT
1 ATAATATAA-AAT
*
22805489 ATGATATAAAAT
1 ATAATATAAAAT
22805501 ATAA
1 ATAA
22805505 AAATAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:22805550 original size:17 final size:18
Alignment explanation
Indices: 22805514--22805556 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22805504 AAAATAATTT
*
22805514 AATTTAAATTTTTAATAA
1 AATTTAAATATTTAATAA
*
22805532 AATTTATATATTT-ATAA
1 AATTTAAATATTTAATAA
*
22805549 AAATTAAA
1 AATTTAAA
22805557 AATATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTAAATATTTAATAA
Found at i:22805910 original size:17 final size:17
Alignment explanation
Indices: 22805884--22805917 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22805874 TATCATAATT
*
22805884 TTTAATTAAAATATTTA
1 TTTAAATAAAATATTTA
*
22805901 TTTAAATAAAGTATTTA
1 TTTAAATAAAATATTTA
22805918 ATTTTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAATAAAATATTTA
Found at i:22806290 original size:32 final size:34
Alignment explanation
Indices: 22806254--22806317 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
22806244 ATATAATATT
*
22806254 AATTTT-AAATTTGAATTT-GATTCAA-ATTTTAA
1 AATTTTAAAATTT-AATTTAAATTCAAGATTTTAA
22806286 AATTTTAAAATTTAATTTAAATTCAAGATTTT
1 AATTTTAAAATTTAATTTAAATTCAAGATTTT
22806318 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 12 0.43
34 5 0.18
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (34 bp):
AATTTTAAAATTTAATTTAAATTCAAGATTTTAA
Found at i:22806399 original size:41 final size:41
Alignment explanation
Indices: 22806317--22806400 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 41
22806307 TTCAAGATTT
* *
22806317 TTATTTTTTTAATTTAAGTTTGATTTAAAATAAAAATTAAA
1 TTATTTTTTTAATTTAAATTTGAATTAAAATAAAAATTAAA
22806358 TTATTTTGTTTAA-TTAAATTT-AATTAACATATAAAAA-TAAA
1 TTATTTT-TTTAATTTAAATTTGAATTAA-A-ATAAAAATTAAA
22806399 TT
1 TT
22806401 TAATTATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
40 5 0.13
41 21 0.55
42 12 0.32
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (41 bp):
TTATTTTTTTAATTTAAATTTGAATTAAAATAAAAATTAAA
Found at i:22806516 original size:19 final size:20
Alignment explanation
Indices: 22806466--22806505 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22806456 TTGATATATT
*
22806466 ATATAAATTAAAATAATAAA
1 ATATATATTAAAATAATAAA
22806486 ATATATATTAAAAT-ATAAA
1 ATATATATTAAAATAATAAA
22806505 A
1 A
22806506 ATTTGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATATATTAAAATAATAAA
Found at i:22807940 original size:25 final size:27
Alignment explanation
Indices: 22807905--22807963 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
22807895 ATAATTTTAA
22807905 ATAAATATTTTTAAT-AA-AAATATTG
1 ATAAATATTTTTAATAAATAAATATTG
* *
22807930 ATAAATCTTTTTATTAAATAAATATTG
1 ATAAATATTTTTAATAAATAAATATTG
22807957 ATCAAAT
1 AT-AAAT
22807964 TTAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.45
26 2 0.07
27 10 0.34
28 4 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (27 bp):
ATAAATATTTTTAATAAATAAATATTG
Found at i:22808061 original size:25 final size:24
Alignment explanation
Indices: 22808022--22808069 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22808012 TTACATTAAA
22808022 TTTTATTAATCTATTAATTTAAAAT
1 TTTTATTAATCTATT-ATTTAAAAT
*
22808047 TTTTATTAAAT-TATTCTTTAAAA
1 TTTTATT-AATCTATTATTTAAAA
22808070 AAATTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTATTAATCTATTATTTAAAAT
Found at i:22809221 original size:23 final size:23
Alignment explanation
Indices: 22809195--22809246 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
22809185 ATAATAATTA
*
22809195 TTATTATAATTATGATTAAAGAT
1 TTATTATAATTATGATTAAAAAT
*
22809218 TTATTATAGTTATGATTAAAAAT
1 TTATTATAATTATGATTAAAAAT
22809241 TT-TTAT
1 TTATTAT
22809247 GTTTAATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (23 bp):
TTATTATAATTATGATTAAAAAT
Found at i:22809696 original size:1 final size:1
Alignment explanation
Indices: 22809690--22809714 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22809680 ACAATGCTTT
22809690 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
22809715 CAGTTCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22810347 original size:18 final size:18
Alignment explanation
Indices: 22810306--22810350 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
22810296 TTAATTTTTC
22810306 AATTTGAATATATTATAT
1 AATTTGAATATATTATAT
*
22810324 ACATTT-AATATATTAATTT
1 A-ATTTGAATATATT-ATAT
22810343 AATTTGAA
1 AATTTGAA
22810351 CCAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
AATTTGAATATATTATAT
Found at i:22811859 original size:26 final size:25
Alignment explanation
Indices: 22811808--22811859 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
22811798 GTAATAAAAA
* *
22811808 ATTTAAATTTGACTTATAATTCATT
1 ATTTAAATTTAACTTATAATTAATT
* *
22811833 ATTTAAAATTTAATTTATACTTAATT
1 ATTT-AAATTTAACTTATAATTAATT
22811859 A
1 A
22811860 AATTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTAAATTTAACTTATAATTAATT
Found at i:22811883 original size:22 final size:22
Alignment explanation
Indices: 22811836--22811894 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
22811826 ATTCATTATT
*
22811836 TAAAATTTAATTTATACTTAAT
1 TAAAATTTAATTTATACTTAAA
* *
22811858 TAAATTTTAATTTA-ATTTGAAA
1 TAAAATTTAATTTATACTT-AAA
* *
22811880 TAAAAATTAAATTAT
1 TAAAATTTAATTTAT
22811895 TAAATTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAAATTTAATTTATACTTAAA
Found at i:22812008 original size:19 final size:19
Alignment explanation
Indices: 22811973--22812010 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22811963 TAAAAATAAG
*
22811973 ATAATAAAATTTAATTAAA
1 ATAATAAAATATAATTAAA
22811992 ATAATAAAA-ATATATTAAA
1 ATAATAAAATATA-ATTAAA
22812011 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATAAAATATAATTAAA
Found at i:22817795 original size:34 final size:35
Alignment explanation
Indices: 22817733--22817804 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
22817723 TCATGCGAAT
* *
22817733 TTTCATAATTCAGTATATT-AATATTTTTGATAAA
1 TTTCATAATTCAGTATATTAAAAATTTTGGATAAA
* *
22817767 TTTCATAATTCA-TCATGTTAAAAATTTTGGGTAAA
1 TTTCATAATTCAGT-ATATTAAAAATTTTGGATAAA
22817802 TTT
1 TTT
22817805 AATTCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 16 0.50
35 15 0.47
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (35 bp):
TTTCATAATTCAGTATATTAAAAATTTTGGATAAA
Found at i:22821572 original size:16 final size:15
Alignment explanation
Indices: 22821551--22821632 Score: 65
Period size: 16 Copynumber: 5.0 Consensus size: 15
22821541 GTTAAATACG
22821551 ATAATATAACATAAAA
1 ATAATATAA-ATAAAA
*
22821567 ATAATATGAATAAAAA
1 ATAATATAAAT-AAAA
* *
22821583 ATATTTTAAATATGATATA
1 ATAATATAAATA--A-A-A
22821602 ATAATATAATATAAAA
1 ATAATATAA-ATAAAA
*
22821618 ATAATACAAATAAAA
1 ATAATATAAATAAAA
22821633 GATATAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
15 9 0.17
16 29 0.55
17 2 0.04
18 2 0.04
19 8 0.15
20 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAATATAAATAAAA
Found at i:22822964 original size:15 final size:16
Alignment explanation
Indices: 22822946--22822978 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22822936 AATTTATTAC
*
22822946 TTTTATTT-TTTAATA
1 TTTTATTTGTATAATA
22822961 TTTTATTTGTATAATA
1 TTTTATTTGTATAATA
22822977 TT
1 TT
22822979 ACCGACTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTATTTGTATAATA
Found at i:22823686 original size:23 final size:23
Alignment explanation
Indices: 22823626--22823687 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
22823616 TATAAAAAAT
*
22823626 ATAAAAAT-AACATAT-AATTTA
1 ATAAAAATAAAAATATAAATTTA
**
22823647 A-AGTAATAAAATTATATAAATTTA
1 ATAAAAATAAAA--ATATAAATTTA
22823671 ATAAAAATAAAAATATA
1 ATAAAAATAAAAATATA
22823688 TTTTATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
20 4 0.13
21 3 0.10
23 9 0.29
24 7 0.23
25 8 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAAATAAAAATATAAATTTA
Found at i:22823897 original size:18 final size:18
Alignment explanation
Indices: 22823876--22823926 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
22823866 TATTAAATTT
22823876 ATTTATAATTTTTATTAA
1 ATTTATAATTTTTATTAA
* *
22823894 ATTT-TAAATTTTATTAT
1 ATTTATAATTTTTATTAA
* *
22823911 TTTTAAAATTTTTATT
1 ATTTATAATTTTTATT
22823927 TATATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATAATTTTTATTAA
Found at i:22823907 original size:17 final size:17
Alignment explanation
Indices: 22823862--22823922 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 17
22823852 TATATTTTTT
22823862 ATTTTATTAAATTTATTTATA
1 ATTTTATTAAA--T-TTTA-A
22823883 ATTTTTATTAAATTTTAA
1 A-TTTTATTAAATTTTAA
*
22823901 ATTTTATT-ATTTTTAAA
1 ATTTTATTAAATTTT-AA
22823918 ATTTT
1 ATTTT
22823923 TATTTATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.14
17 14 0.38
18 2 0.05
19 4 0.11
20 1 0.03
21 1 0.03
22 10 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTATTAAATTTTAA
Found at i:22823925 original size:15 final size:15
Alignment explanation
Indices: 22823895--22823942 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22823885 TTTTATTAAA
*
22823895 TTTTAAATTTTATTAT
1 TTTTAAAATTT-TTAT
22823911 TTTTAAAATTTTTAT
1 TTTTAAAATTTTTAT
* **
22823926 TTATATTATTTTTAT
1 TTTTAAAATTTTTAT
22823941 TT
1 TT
22823943 CGTATTATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAAAATTTTTAT
Found at i:22823932 original size:24 final size:25
Alignment explanation
Indices: 22823873--22823940 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
22823863 TTTTATTAAA
22823873 TTTATTTATA--ATTTTTATTAAATT
1 TTTATTTATATTATTTTTA-TAAATT
*
22823897 TTAAATTT-TATTATTTTTA-AAATT
1 TT-TATTTATATTATTTTTATAAATT
22823921 TTTATTTATATTATTTTTAT
1 TTTATTTATATTATTTTTAT
22823941 TTCGTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 4 0.11
24 22 0.59
25 4 0.11
26 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTATTTATATTATTTTTATAAATT
Found at i:22833364 original size:2 final size:2
Alignment explanation
Indices: 22833357--22833460 Score: 75
Period size: 2 Copynumber: 52.5 Consensus size: 2
22833347 ACTTTATGCA
** * * * *
22833357 AT AT AT AT AT AT AT AT AT -T AT GC AT GT AT GT AT AT GT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
22833398 AT AT AT GT AT AT AT GT AT AT AT AA AA AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
22833440 AT AT GT AC AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
22833461 CATACATATG
Statistics
Matches: 75, Mismatches: 26, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (2 bp):
AT
Found at i:22835923 original size:208 final size:204
Alignment explanation
Indices: 22835558--22835937 Score: 475
Period size: 208 Copynumber: 1.8 Consensus size: 204
22835548 ATAATATGAC
* * * * * *
22835558 AATTATTTTTATTGAAATTTCATTTAAATTCTTTCATAATTTAGGACAAATTTAAAGAAATTTCT
1 AATTATTGTTATTGAAACTTCATCTAAATTATTTCACAATTTAGGACAAATTTAAAAAAATTTCT
* *
22835623 CATCTAAAGATTTCTTAAAAATTTACCATTTGAAATTTCTAATAATCTCATCATTGGATAATTGT
66 CACCTAAAGATTTCTTAAAAATTTACCATTTGAAATTTCTAATAATCTCATCATTGGATAATTAT
* *
22835688 CAAATATTTTCAATAAAATTTTTTTATTTTTATTTATGATTTTTTCCTCTTTTTTTCTTTGTTTA
131 CAAATATTCTCAATAAAATTATTTTA-TTTTATTT-T-ATTTTTTCCTCTTTTTTTCTTTGTTTA
22835753 AAAATAAATATT
193 AAAATAAATATT
* * *
22835765 AATTATTGTTATTGAAACTTCATCTAAATTATTTCACCATTTGGGATAAATTTAGATAAAAATTT
1 AATTATTGTTATTGAAACTTCATCTAAATTATTTCACAATTTAGGACAAATTTA-A-AAAAATTT
* *
22835830 -TTACCTAGAA-ATTT-TATAAAAATTTACCATTTGAAATTTCT-ATAAATTTCATCATTGGATA
64 CTCACCTA-AAGATTTCT-TAAAAATTTACCATTTGAAATTTCTAAT-AATCTCATCATTGGATA
**
22835891 ATTAAT-ACTTATTCTCAA-AAAATATATTTTATTTTATTTTATTTTTT
126 ATT-ATCAAATATTCTCAATAAAAT-TATTTTATTTTATTTTATTTTTT
22835938 ATTTTTTTAA
Statistics
Matches: 149, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
205 7 0.05
206 1 0.01
207 62 0.42
208 69 0.46
209 10 0.07
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (204 bp):
AATTATTGTTATTGAAACTTCATCTAAATTATTTCACAATTTAGGACAAATTTAAAAAAATTTCT
CACCTAAAGATTTCTTAAAAATTTACCATTTGAAATTTCTAATAATCTCATCATTGGATAATTAT
CAAATATTCTCAATAAAATTATTTTATTTTATTTTATTTTTTCCTCTTTTTTTCTTTGTTTAAAA
ATAAATATT
Found at i:22836497 original size:20 final size:18
Alignment explanation
Indices: 22836465--22836501 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
22836455 CAACAAAATC
22836465 ATCAAAAAATTCAATCGAT
1 ATCAAAAAATTC-ATCGAT
22836484 ATCAAAAAATTTCATCGA
1 ATCAAAAAA-TTCATCGA
22836502 AATATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (18 bp):
ATCAAAAAATTCATCGAT
Found at i:22837033 original size:41 final size:41
Alignment explanation
Indices: 22836945--22837308 Score: 379
Period size: 41 Copynumber: 8.7 Consensus size: 41
22836935 TCTTCCAAAT
* * * *
22836945 AGAGGCACAACAATTTTGAAAAATAAAAAAGGTTCCTCTAAAT
1 AGAGGCACAACAACTTT-AAAAA-ATAAAAGGCTCCTCTAAAC
22836988 AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
1 AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
* * * *
22837029 AGAGGCATAACAACTTTGAAAAATAAAAAGCTCTTCTAAAC
1 AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
* * *
22837070 AGAGGCACAACAATTTTAAAAAATAAAATGCTCCTATAAAC
1 AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
* * * * * *
22837111 AAAGACACAACAATTTTGAAAAATAAAAGGTTCATCTAAAC
1 AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
* *
22837152 AAAGGCACAACAACTTTTGAAAAAATAAAAGGCTCCTCTAAAT
1 AGAGGCACAACAAC-TTT-AAAAAATAAAAGGCTCCTCTAAAC
* * * *
22837195 AGAGGTACAATAACTTTGAAAAAAATAAAACGCTCCTCTAAAT
1 AGAGGCACAACAACTTT--AAAAAATAAAAGGCTCCTCTAAAC
* * **
22837238 AGAAGCACAACATA-TTTGAAAAAATAAAAAGCTTTTCTAAAC
1 AGAGGCACAACA-ACTTT-AAAAAATAAAAGGCTCCTCTAAAC
* * *
22837280 AAAGGCATAACAACTTTGAAAAATAAAAG
1 AGAGGCACAACAACTTTAAAAAATAAAAG
22837309 CTCATTAACA
Statistics
Matches: 271, Mismatches: 45, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
41 145 0.54
42 43 0.16
43 82 0.30
44 1 0.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (41 bp):
AGAGGCACAACAACTTTAAAAAATAAAAGGCTCCTCTAAAC
Found at i:22837091 original size:82 final size:82
Alignment explanation
Indices: 22836945--22837311 Score: 421
Period size: 82 Copynumber: 4.4 Consensus size: 82
22836935 TCTTCCAAAT
* * * *
22836945 AGAGGCACAACAATTTTGAAAAATAAAAAAGGTTCCTCTAAATAGAGGCACAACAACTTTAAAAA
1 AGAGGCACAACAACTTTGAAAAAT-AAAAA-GCTCCTCTAAACAGAGGCACAACAATTTTAAAAA
22837010 ATAAAAGGCTCCTCTAAAC
64 ATAAAAGGCTCCTCTAAAC
* *
22837029 AGAGGCATAACAACTTTGAAAAATAAAAAGCTCTTCTAAACAGAGGCACAACAATTTTAAAAAAT
1 AGAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAATTTTAAAAAAT
* *
22837094 AAAATGCTCCTATAAAC
66 AAAAGGCTCCTCTAAAC
* * * * * * *
22837111 AAAGACACAACAATTTTGAAAAATAAAAGGTTCATCTAAACAAAGGCACAACAACTTTTGAAAAA
1 AGAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAA-TTTT-AAAAA
*
22837176 ATAAAAGGCTCCTCTAAAT
64 ATAAAAGGCTCCTCTAAAC
* * * * * *
22837195 AGAGGTACAATAACTTTGAAAAAAATAAAACGCTCCTCTAAATAGAAGCACAACATATTTGAAAA
1 AGAGGCACAACAACTTTG--AAAAATAAAAAGCTCCTCTAAACAGAGGCACAACA-ATTTTAAAA
* **
22837260 AATAAAAAGCTTTTCTAAAC
63 AATAAAAGGCTCCTCTAAAC
* *
22837280 AAAGGCATAACAACTTTGAAAAAT-AAAAGCTC
1 AGAGGCACAACAACTTTGAAAAATAAAAAGCTC
22837312 ATTAACAACT
Statistics
Matches: 238, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
82 100 0.42
83 15 0.06
84 56 0.24
85 34 0.14
86 32 0.13
87 1 0.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (82 bp):
AGAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAATTTTAAAAAAT
AAAAGGCTCCTCTAAAC
Found at i:22837713 original size:33 final size:33
Alignment explanation
Indices: 22837676--22837738 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
22837666 AGTTGTTTTT
22837676 AAAGATTCTCATTGGAAAAACTCAAAGATTCTC
1 AAAGATTCTCATTGGAAAAACTCAAAGATTCTC
* *
22837709 AAAGATTTTCATTTGAAAAACTCAAAGATT
1 AAAGATTCTCATTGGAAAAACTCAAAGATT
22837739 TTCATTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (33 bp):
AAAGATTCTCATTGGAAAAACTCAAAGATTCTC
Found at i:22837736 original size:23 final size:23
Alignment explanation
Indices: 22837706--22837844 Score: 104
Period size: 23 Copynumber: 5.8 Consensus size: 23
22837696 CTCAAAGATT
22837706 CTCAAAGATTTTCATTTGAAAAA
1 CTCAAAGATTTTCATTTGAAAAA
*
22837729 CTCAAAGATTTTCATTTGAAAAC
1 CTCAAAGATTTTCATTTGAAAAA
* * *
22837752 CTCTTAAAAATTATCATTCG--AAA
1 CTC--AAAGATTTTCATTTGAAAAA
* * *
22837775 TTCAAAGGTTTTCATTGGAAAACTAAAAA
1 CTCAAAGATTTTCATTTG------AAAAA
*
22837804 TTCAAAGATTTTCATTTG-AAAA
1 CTCAAAGATTTTCATTTGAAAAA
*
22837826 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTTTCATTTGA
22837845 GGATTCATAA
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
21 11 0.12
22 20 0.22
23 29 0.32
25 12 0.13
29 19 0.21
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.35
Consensus pattern (23 bp):
CTCAAAGATTTTCATTTGAAAAA
Found at i:22837815 original size:29 final size:30
Alignment explanation
Indices: 22837772--22837836 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
22837762 TTATCATTCG
*
22837772 AAATTCAAAGGTTTTCATTGGAAAACT-AA
1 AAATTCAAAGATTTTCATTGGAAAACTCAA
*
22837801 AAATTCAAAGATTTTCATTTGAAAACTCAA
1 AAATTCAAAGATTTTCATTGGAAAACTCAA
*
22837831 AGATTC
1 AAATTC
22837837 TCATTTGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (30 bp):
AAATTCAAAGATTTTCATTGGAAAACTCAA
Found at i:22837825 original size:22 final size:22
Alignment explanation
Indices: 22837800--22837844 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
22837790 TGGAAAACTA
* *
22837800 AAAATTCAAAGATTTTCATTTG
1 AAAACTCAAAGATTCTCATTTG
22837822 AAAACTCAAAGATTCTCATTTG
1 AAAACTCAAAGATTCTCATTTG
22837844 A
1 A
22837845 GGATTCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (22 bp):
AAAACTCAAAGATTCTCATTTG
Found at i:22839087 original size:8 final size:7
Alignment explanation
Indices: 22839070--22839148 Score: 54
Period size: 7 Copynumber: 11.1 Consensus size: 7
22839060 TTTTTTAAAA
22839070 TATTTTT
1 TATTTTT
22839077 TATTCTTT
1 TATT-TTT
22839085 TATTTTT
1 TATTTTT
22839092 TCATTTTT
1 T-ATTTTT
*
22839100 TTTTTTT
1 TATTTTT
* *
22839107 TCTCTTT
1 TATTTTT
*
22839114 CA-TTTT
1 TATTTTT
*
22839120 CATTTTT
1 TATTTTT
**
22839127 TCCCTTTT
1 T-ATTTTT
22839135 T-TTTTT
1 TATTTTT
22839141 TATTTTT
1 TATTTTT
22839148 T
1 T
22839149 TCCATCCATT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 10 0.18
7 28 0.49
8 19 0.33
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:22839088 original size:15 final size:15
Alignment explanation
Indices: 22839070--22839119 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
22839060 TTTTTTAAAA
22839070 TATTTTTTATTCTTT
1 TATTTTTTATTCTTT
22839085 TATTTTTTCATT-TTT
1 TATTTTTT-ATTCTTT
22839100 T-TTTTTT-TCTCTTT
1 TATTTTTTAT-TCTTT
*
22839114 CATTTT
1 TATTTT
22839120 CATTTTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 1 0.03
13 1 0.03
14 9 0.30
15 16 0.53
16 3 0.10
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTTATTCTTT
Found at i:22839098 original size:21 final size:22
Alignment explanation
Indices: 22839074--22839127 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
22839064 TTAAAATATT
22839074 TTTTATTCTTTTATT-T-TTTCA
1 TTTTATT-TTTTATTCTCTTTCA
*
22839095 TTTT-TTTTTTTTTCTCTTTCA
1 TTTTATTTTTTATTCTCTTTCA
22839116 TTTTCATTTTTT
1 TTTT-ATTTTTT
22839128 CCCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
21 13 0.46
23 6 0.21
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTTTTTATTCTCTTTCA
Found at i:22839102 original size:27 final size:27
Alignment explanation
Indices: 22839072--22839127 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
22839062 TTTTAAAATA
22839072 TTTTTTATTCT-TTT-ATTTTTTCATTTT
1 TTTTTTATTCTCTTTCA--TTTTCATTTT
*
22839099 TTTTTTTTTCTCTTTCATTTTCATTTT
1 TTTTTTATTCTCTTTCATTTTCATTTT
22839126 TT
1 TT
22839128 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 22 0.85
28 3 0.12
29 1 0.04
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTTATTCTCTTTCATTTTCATTTT
Found at i:22844303 original size:13 final size:13
Alignment explanation
Indices: 22844285--22844309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22844275 AATCGATGTA
22844285 AAAAAATTTCACT
1 AAAAAATTTCACT
22844298 AAAAAATTTCAC
1 AAAAAATTTCAC
22844310 CAGAACTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATTTCACT
Found at i:22844663 original size:4 final size:4
Alignment explanation
Indices: 22844654--22844701 Score: 60
Period size: 4 Copynumber: 11.0 Consensus size: 4
22844644 CTTTTCTTTA
22844654 TATT TATT TATT TATT TATT TATTT TGATTT TGATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TA-TT T-A-TT T-ATT TATT TATT TATT
22844702 GTTAATTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 29 0.69
5 6 0.14
6 7 0.17
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:22847202 original size:2 final size:2
Alignment explanation
Indices: 22847195--22847220 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22847185 AAGTTCCACA
22847195 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22847221 CTTGCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22854241 original size:20 final size:21
Alignment explanation
Indices: 22854218--22854256 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
22854208 TTATTTGATA
22854218 TTATAATTTAAATT-AATTTT
1 TTATAATTTAAATTGAATTTT
* *
22854238 TTATATTTTTAATTGAATT
1 TTATAATTTAAATTGAATT
22854257 GGTACAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATAATTTAAATTGAATTTT
Found at i:22854966 original size:6 final size:6
Alignment explanation
Indices: 22854955--22855051 Score: 63
Period size: 6 Copynumber: 15.8 Consensus size: 6
22854945 ATATAATAAA
* * * *
22854955 AAATTT AAATTT AAATTT TAATTCA AAATTA AAATTTT GAAATTT -AATTA
1 AAATTT AAATTT AAATTT AAATT-T AAATTT AAA-TTT -AAATTT AAATTT
* * * * *
22855005 AAATTT AATTTT AAATTTT AAATTT -GATTT AAAATA AAAATT AAATT
1 AAATTT AAATTT AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATT
22855052 ATTCAAATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
5 8 0.11
6 45 0.63
7 15 0.21
8 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:22855049 original size:30 final size:31
Alignment explanation
Indices: 22854974--22855060 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
22854964 TTTAAATTTT
* *
22854974 AATTCAAAATTAAAATTTTGAAATTTAATTAA
1 AATTAAAAATT-AAATTTTCAAATTTAATTAA
* ** *
22855006 AATTTAATTTTAAATTTT-AAATTTGATTTAA
1 AATTAAAAATTAAATTTTCAAATTT-AATTAA
22855037 AA-TAAAAATTAAATTATTCAAATT
1 AATTAAAAATTAAATT-TTCAAATT
22855061 CATTTAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 16 0.36
31 16 0.36
32 13 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
AATTAAAAATTAAATTTTCAAATTTAATTAA
Found at i:22860599 original size:21 final size:23
Alignment explanation
Indices: 22860554--22860600 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
22860544 ATTTTTTTTG
* *
22860554 TTTTATATATTATTTTAATATAA
1 TTTTAAATATTATTTAAATATAA
22860577 TTTTAAATA-TATTTAAATA-AA
1 TTTTAAATATTATTTAAATATAA
22860598 TTT
1 TTT
22860601 AAGTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 9 0.41
23 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAATATTATTTAAATATAA
Found at i:22860601 original size:20 final size:21
Alignment explanation
Indices: 22860567--22860607 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22860557 TATATATTAT
*
22860567 TTTAATATAATTTTAAATATA
1 TTTAATATAAATTTAAATATA
*
22860588 TTTAA-ATAAATTTAAGTATA
1 TTTAATATAAATTTAAATATA
22860608 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:22860674 original size:18 final size:18
Alignment explanation
Indices: 22860626--22860675 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
22860616 ATTTTTATTT
22860626 TATAAACATTTAAAAAATA
1 TATAAA-ATTTAAAAAATA
*
22860645 TATAAAAATTAATAAAA-A
1 TATAAAATTTAA-AAAATA
*
22860663 TATATAATTTAAA
1 TATAAAATTTAAA
22860676 TCAGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.59
19 10 0.37
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TATAAAATTTAAAAAATA
Found at i:22869765 original size:17 final size:16
Alignment explanation
Indices: 22869739--22869781 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
22869729 TTATTTTTTG
*
22869739 ATTAATTTAATTCAAAA
1 ATTAAATTAATT-AAAA
22869756 ATTAAATTAATTAAAA
1 ATTAAATTAATTAAAA
*
22869772 ATTTAATTAA
1 ATTAAATTAA
22869782 AAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAAATTAATTAAAA
Found at i:22869878 original size:26 final size:25
Alignment explanation
Indices: 22869843--22869892 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
22869833 TTAAAATAAT
22869843 TAAAATTTTTAATTTAATATTTTTA
1 TAAAATTTTTAATTTAATATTTTTA
* *
22869868 TAAAATATTTTTATTTAATTTTTTT
1 TAAAAT-TTTTAATTTAATATTTTT
22869893 CACATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TAAAATTTTTAATTTAATATTTTTA
Found at i:22869892 original size:13 final size:13
Alignment explanation
Indices: 22869842--22869891 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
22869832 TTTAAAATAA
*
22869842 TTAAAATTTTTAAT
1 TTAATATTTTT-AT
22869856 TTAATATTTTTAT
1 TTAATATTTTTAT
**
22869869 AAAATATTTTTAT
1 TTAATATTTTTAT
22869882 TTAAT-TTTTT
1 TTAATATTTTT
22869892 TCACATATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 5 0.16
13 16 0.52
14 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATATTTTTAT
Found at i:22870958 original size:124 final size:123
Alignment explanation
Indices: 22870812--22871092 Score: 291
Period size: 124 Copynumber: 2.3 Consensus size: 123
22870802 ATATGTTTCT
* * * * ** *
22870812 AAAAACGCCTTAAATAATGTCTTTTAAAAAATTTGTGGTTTTGTTTAAAAT-TTTTTTGTCTAAA
1 AAAAACACTTTAAATAATGTCTTTTAAAAAATTTAT-G-ATAATTTAAAATATTTTTTGTCGAAA
* **
22870876 AACACATTAAATAACGAGATT-ATATTTGTTAAAGGGT-ATTATTTAA-AGTATTTTTGGACC
64 AACACATTAAATAA-GAGATTCATATTTGTTAAA-AGTCATTATTTAAGA-TATTTTCAGACC
* *
22870936 AAAAATACTTTAAATAATGTCTTTTAAAAAAATTTATGATAATTTAAGATATTTTTTGTCGAAAA
1 AAAAACACTTTAAATAATGTCTTTT-AAAAAATTTATGATAATTTAAAATATTTTTTGTCGAAAA
* * * ** *
22871001 ATACCTTAAATAATATCTTCATATTTGTTAAAAGTCATTATTTAAGATATTTTCAGACT
65 ACACATTAAATAAGAGATTCATATTTGTTAAAAGTCATTATTTAAGATATTTTCAGACC
* *
22871060 AAAAACGCTTTAAATAATGCTCTTTAAAAAAAT
1 AAAAACACTTTAAATAATG-TCTTTTAAAAAAT
22871093 AAAGGAAATT
Statistics
Matches: 130, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
123 13 0.10
124 101 0.78
125 16 0.12
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (123 bp):
AAAAACACTTTAAATAATGTCTTTTAAAAAATTTATGATAATTTAAAATATTTTTTGTCGAAAAA
CACATTAAATAAGAGATTCATATTTGTTAAAAGTCATTATTTAAGATATTTTCAGACC
Found at i:22871258 original size:183 final size:187
Alignment explanation
Indices: 22871037--22871398 Score: 459
Period size: 189 Copynumber: 1.9 Consensus size: 187
22871027 GTTAAAAGTC
*
22871037 ATTATTTAAGATATTTTCAGACTAAAAACGCTTTAAATAATGCTCTTTAAAAAAA-TAAAGGAAA
1 ATTATTTAAGATATTTTCAGACTAAAAACGCCTTAAATAATGCTCTTTAAAAAAATTAAAGGAAA
* *
22871101 TTATTTAAAGCA-TTTTGGTCTAGAAACATCTTAAATAGTCATATTT-AAAA-AAAAAAGATTAT
66 TTATTTAAAGCATTTTTGATCTAAAAACATCTTAAATAGTCATATTTAAAAATAAAAAAGATTAT
* *
22871163 TTAAAGTGTTTCTGGACCAAAAATG-TCTTAAATAATCT-TCATTAAAATTATTAAAAA
131 TTAAAGTATTTCTGGACCAAAAA-GACCTTAAATAATCTAT-ATTAAAATTATTAAAAA
* * ** * *
22871220 ATTATTTAAGATATTTT-TGATTTAAAAACGCCTTAAATAATGCTCTTTAAAAAAATTTTATGAT
1 ATTATTTAAGATATTTTCAGA-CTAAAAACGCCTTAAATAATGCTCTTTAAAAAAATTAAAGGAA
* * * * **
22871284 ATTATTTAAGGTATTTTTTTATCTAAAAATATCTTAAATAGTGTTATTTAAAAAATAAAAAAGAT
65 ATTATTTAAAGCA-TTTTTGATCTAAAAACATCTTAAATAGTCATATTT-AAAAATAAAAAAGAT
* *
22871349 TATTTAAGGTATTTTTGGACCAAAAAGACCTTAAATAATCTATATTAAAA
128 TATTTAAAGTATTTCTGGACCAAAAAGACCTTAAATAATCTATATTAAAA
22871399 AATATCAGGA
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
182 2 0.01
183 49 0.32
184 15 0.10
186 28 0.19
188 5 0.03
189 51 0.34
190 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (187 bp):
ATTATTTAAGATATTTTCAGACTAAAAACGCCTTAAATAATGCTCTTTAAAAAAATTAAAGGAAA
TTATTTAAAGCATTTTTGATCTAAAAACATCTTAAATAGTCATATTTAAAAATAAAAAAGATTAT
TTAAAGTATTTCTGGACCAAAAAGACCTTAAATAATCTATATTAAAATTATTAAAAA
Found at i:22871400 original size:63 final size:63
Alignment explanation
Indices: 22871037--22871468 Score: 203
Period size: 63 Copynumber: 6.9 Consensus size: 63
22871027 GTTAAAAGTC
* ** * *
22871037 ATTATTTAAGATATTTTCAGACTAAAAACG-CTTTAAATAATGCTCT-TTAAAAAAATAAAGGAA
1 ATTATTTAAGGTATTTTTGGACTAAAAA-GACCTTAAATAAT-CTCTATTAAAAAAATAAA-AAA
22871100 -
63 G
* * * * * * * * *
22871100 ATTATTTAAAGCA-TTTTGGTCTAGAAACATCTTAAATAGTC-ATATT--TAAAA-AAAAAAG
1 ATTATTTAAGGTATTTTTGGACTAAAAAGACCTTAAATAATCTCTATTAAAAAAATAAAAAAG
* * * * * ** *
22871158 ATTATTTAAAGTGTTTCTGGACCAAAAATG-TCTTAAATAATCT-TCATTAAAATTATTAAAAA-
1 ATTATTTAAGGTATTTTTGGACTAAAAA-GACCTTAAATAATCTCT-ATTAAAAAAATAAAAAAG
* * ** **
22871220 ATTATTTAAGATATTTTT-GATTTAAAAACG-CCTTAAATAATGCTCT-TTAAAAAAATTTTATG
1 ATTATTTAAGGTATTTTTGGA-CTAAAAA-GACCTTAAATAAT-CTCTATTAAAAAAA-TAAAAA
*
22871282 AT
62 AG
** * * * * *
22871284 ATTATTTAAGGTATTTTTTTATCTAAAAATATCTTAAATAGTGT-TATTTAAAAAATAAAAAAG
1 ATTATTTAAGGTATTTTTGGA-CTAAAAAGACCTTAAATAATCTCTATTAAAAAAATAAAAAAG
* * * **
22871347 ATTATTTAAGGTATTTTTGGACCAAAAAGACCTTAAATAATCTATATT-AAAAAATATCAGGAG
1 ATTATTTAAGGTATTTTTGGACTAAAAAGACCTTAAATAATCTCTATTAAAAAAATA-AAAAAG
*** * * * * * *
22871410 ATTATTTAAGACGTTTTTGGACCAAGAACACTTTAAATAATATCTTTTAAAAAAATAAA
1 ATTATTTAAGGTATTTTTGGACTAAAAAGACCTTAAATAATCTCTATTAAAAAAATAAA
22871469 GTAGATCTTT
Statistics
Matches: 276, Mismatches: 72, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
57 2 0.01
58 14 0.05
59 26 0.09
60 4 0.01
61 5 0.02
62 82 0.30
63 91 0.33
64 35 0.13
65 17 0.06
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (63 bp):
ATTATTTAAGGTATTTTTGGACTAAAAAGACCTTAAATAATCTCTATTAAAAAAATAAAAAAG
Found at i:22878603 original size:26 final size:26
Alignment explanation
Indices: 22878551--22878603 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
22878541 ATATTTGATG
* **
22878551 ATCATTTAAGGCGTTTTTATGGAAAA
1 ATCATTTAAGGCATTTTTATCAAAAA
22878577 ATCATTTAAGGCATTTTT-TCAATAAA
1 ATCATTTAAGGCATTTTTATCAA-AAA
22878603 A
1 A
22878604 ACACCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (26 bp):
ATCATTTAAGGCATTTTTATCAAAAA
Found at i:22878657 original size:72 final size:74
Alignment explanation
Indices: 22878577--22878741 Score: 210
Period size: 72 Copynumber: 2.3 Consensus size: 74
22878567 TTATGGAAAA
* * * *
22878577 ATCATTTAAGGCATTTTTTCAATAAAAACACCTTAAATGATAG-ATTAC-AATAAAAA-AATGAA
1 ATCATTTAAGGTATTTTTTCAAAAAAAACACCTTAAATGAT-GTATTACAAACAAAAATAACGAA
*
22878639 ATATTTGATG
65 ATATTTAATG
* ** *
22878649 ATCATTTAAGGTGTTTTTAGAAAAAAAACACCTTAAATGATGTATTGCAAACAAAAATAACGAAA
1 ATCATTTAAGGTATTTTTTCAAAAAAAACACCTTAAATGATGTATTACAAACAAAAATAACGAAA
22878714 TATTTAATG
66 TATTTAATG
*
22878723 ATTATTTAAGGTATTTTTT
1 ATCATTTAAGGTATTTTTT
22878742 AATGTCAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 1 0.01
72 40 0.51
73 7 0.09
74 30 0.38
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (74 bp):
ATCATTTAAGGTATTTTTTCAAAAAAAACACCTTAAATGATGTATTACAAACAAAAATAACGAAA
TATTTAATG
Found at i:22879614 original size:130 final size:130
Alignment explanation
Indices: 22879442--22879962 Score: 1008
Period size: 130 Copynumber: 4.0 Consensus size: 130
22879432 TCACCGTCCA
*
22879442 TACAAATTGAAGTTTTAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
1 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
22879507 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
66 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
*
22879572 TACAAATTGAAGTTTTAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
1 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
22879637 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
66 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
22879702 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
1 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
22879767 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
66 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
22879832 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
1 TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
*
22879897 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATT-CTATTTAAG
66 TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
22879961 TA
1 TA
22879963 AGTATTTTAT
Statistics
Matches: 389, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
129 10 0.03
130 379 0.97
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.48
Consensus pattern (130 bp):
TACAAATTGAAGTTTCAACAAATTTCTTAGGTCATGAATATTAAAGTTAAATGGTCACTTAATTT
TTTTTGTAATTTTTATTTTAATCATTCATTTATAAAATCTTATGTTTTACTCATTAATATTTAAG
Found at i:22880196 original size:15 final size:14
Alignment explanation
Indices: 22880175--22880220 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
22880165 TTCGATTAAT
*
22880175 TTTAAATCAAATTA
1 TTTAAATTAAATTA
22880189 TTTAAAATTAAATTA
1 TTT-AAATTAAATTA
*
22880204 ATTAAATTAAATTA
1 TTTAAATTAAATTA
22880218 TTT
1 TTT
22880221 TATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTAAATTA
Found at i:22881444 original size:22 final size:23
Alignment explanation
Indices: 22881417--22881474 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
22881407 TATATATAAA
22881417 TTTAAAATAATACATTT-AT-TTT
1 TTTAAAATAATA-ATTTAATATTT
*
22881439 TTTAAAATTATTAATTTAATATTT
1 TTTAAAA-TAATAATTTAATATTT
22881463 TTATAAAATAAT
1 TT-TAAAATAAT
22881475 TTTATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 11 0.37
23 6 0.20
24 8 0.27
25 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAAATAATAATTTAATATTT
Found at i:22881571 original size:21 final size:21
Alignment explanation
Indices: 22881547--22881593 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
22881537 TTAAATTTTA
22881547 AAATTAA-AATTTTAATTAAAT
1 AAATTAATAA-TTTAATTAAAT
* *
22881568 AAATGAATAATTTAATTTAAT
1 AAATTAATAATTTAATTAAAT
*
22881589 TAATT
1 AAATT
22881594 TTATTCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATTAATAATTTAATTAAAT
Found at i:22882870 original size:22 final size:23
Alignment explanation
Indices: 22882819--22882870 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22882809 TTTATATATT
* *
22882819 TTTTGTTTTATATTAAGATTTAA
1 TTTTATTTTATATTAAAATTTAA
* *
22882842 TTATATTTTA-ATTAAAATTTAG
1 TTTTATTTTATATTAAAATTTAA
22882864 TTTTATT
1 TTTTATT
22882871 CAAAATTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTATTTTATATTAAAATTTAA
Found at i:22885771 original size:32 final size:32
Alignment explanation
Indices: 22885734--22885795 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
22885724 AATTAGACCA
*
22885734 TGTTTTTGCACTTCTGCATATGTAAATGTAAT
1 TGTTTTTGCACTTCTGCATATGCAAATGTAAT
22885766 TGTTTTTGCACTTCTGCATATGCAAATGTA
1 TGTTTTTGCACTTCTGCATATGCAAATGTA
22885796 GGCCAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (32 bp):
TGTTTTTGCACTTCTGCATATGCAAATGTAAT
Found at i:22888021 original size:1 final size:1
Alignment explanation
Indices: 22888017--22888042 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22888007 TTTTTTTTTT
22888017 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
22888043 TTGGTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:22896920 original size:6 final size:6
Alignment explanation
Indices: 22896909--22896943 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
22896899 AGAAAAGGCT
*
22896909 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG AAAGA
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGA
22896944 AGAAACTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:22898422 original size:27 final size:27
Alignment explanation
Indices: 22898391--22898443 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
22898381 CACCTCGAGA
*
22898391 GAGGTAGGGAGAGTGACTAGCCTCCGC
1 GAGGTAAGGAGAGTGACTAGCCTCCGC
* *
22898418 GAGGTAAGTAGAGTGATTAGCCTCCG
1 GAGGTAAGGAGAGTGACTAGCCTCCG
22898444 TGACCTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.38, T:0.19
Consensus pattern (27 bp):
GAGGTAAGGAGAGTGACTAGCCTCCGC
Found at i:22898452 original size:27 final size:27
Alignment explanation
Indices: 22898400--22898452 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
22898390 AGAGGTAGGG
**
22898400 AGAGTGACTAGCCTCCGCGAGGTAAGT
1 AGAGTGACTAGCCTCCGCGACCTAAGT
* *
22898427 AGAGTGATTAGCCTCCGTGACCTAAG
1 AGAGTGACTAGCCTCCGCGACCTAAG
22898453 GAGGAGTCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (27 bp):
AGAGTGACTAGCCTCCGCGACCTAAGT
Found at i:22900943 original size:31 final size:31
Alignment explanation
Indices: 22900908--22900973 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
22900898 CATATAATGT
*
22900908 AAAATATTATAT-TTATATTGTATATT-ACATG
1 AAAATATTATATCATA-ATT-TATATTAACATG
* *
22900939 AAAATTTTGTATCATAATTTATATTAACATG
1 AAAATATTATATCATAATTTATATTAACATG
22900970 AAAA
1 AAAA
22900974 CAAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 6 0.20
31 22 0.73
32 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
AAAATATTATATCATAATTTATATTAACATG
Found at i:22914232 original size:23 final size:23
Alignment explanation
Indices: 22914205--22914249 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
22914195 TACATCGAGG
*
22914205 CATGTTTATCGACAAAAACTCAT
1 CATGTTCATCGACAAAAACTCAT
22914228 CATGTTCATCGACAAAAACTCA
1 CATGTTCATCGACAAAAACTCA
22914250 AATGAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (23 bp):
CATGTTCATCGACAAAAACTCAT
Found at i:22915014 original size:53 final size:53
Alignment explanation
Indices: 22914956--22915059 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
22914946 AAAAACATCA
* *
22914956 AATCACATGAAACATTGAGCAAACCCAACACAAAACACACATATCATAAATCG
1 AATCACATGAAACATTAAGCAAACCCAACACAAAACACACAAATCATAAATCG
* * *
22915009 AATCACATGAAACATTAAGCAAATCCAACATAAAACACACAAATTATAAAT
1 AATCACATGAAACATTAAGCAAACCCAACACAAAACACACAAATCATAAAT
22915060 TACATCAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.54, C:0.23, G:0.06, T:0.17
Consensus pattern (53 bp):
AATCACATGAAACATTAAGCAAACCCAACACAAAACACACAAATCATAAATCG
Found at i:22919422 original size:10 final size:10
Alignment explanation
Indices: 22919407--22919443 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
22919397 CGATGAACTA
22919407 ATGATTTATG
1 ATGATTTATG
*
22919417 ATGATTTGTG
1 ATGATTTATG
22919427 ATGATTTATG
1 ATGATTTATG
22919437 ATGATTT
1 ATGATTT
22919444 TTACAGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (10 bp):
ATGATTTATG
Found at i:22919541 original size:27 final size:26
Alignment explanation
Indices: 22919491--22919541 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
22919481 TGAATAATAG
*
22919491 TATATTTGAAATGATTTATGAATTAA
1 TATATTTGAAATGATTTATAAATTAA
*
22919517 TATATTTGATATTGATTTATAAATT
1 TATATTTGA-AATGATTTATAAATT
22919542 TTGTGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (26 bp):
TATATTTGAAATGATTTATAAATTAA
Found at i:22920863 original size:63 final size:63
Alignment explanation
Indices: 22920784--22920906 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 63
22920774 GGTTTGAAAA
* * *
22920784 ACAAATCTAACTTGTTGACAAGCTTCATCAGCCCTACCAGGTTCTTCATGCTCATCCGGTATG
1 ACAAATCGAACTTGTTGAAAAGCTTCATCAGCCCTACCAGGTTCTTCATCCTCATCCGGTATG
* * *
22920847 ACAAATCGGACTTGTTGAAAAGCTTGATCGGCCCTACCAGGTTCTTCATCCTCATCCGGT
1 ACAAATCGAACTTGTTGAAAAGCTTCATCAGCCCTACCAGGTTCTTCATCCTCATCCGGT
22920907 TGCCACACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (63 bp):
ACAAATCGAACTTGTTGAAAAGCTTCATCAGCCCTACCAGGTTCTTCATCCTCATCCGGTATG
Found at i:22921505 original size:33 final size:31
Alignment explanation
Indices: 22921445--22921510 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 31
22921435 ATTTATTGGT
* *
22921445 TTTTAATTTTTTAAATTATTTTAATATAAAA
1 TTTTAATTATTTAAATGATTTTAATATAAAA
*
22921476 TTTTAATATATTTAAATAGATTTTGATATAAAA
1 TTTTAAT-TATTTAAAT-GATTTTAATATAAAA
22921509 TT
1 TT
22921511 ATTATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 7 0.23
32 8 0.27
33 15 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTTAATTATTTAAATGATTTTAATATAAAA
Found at i:22921548 original size:19 final size:19
Alignment explanation
Indices: 22921524--22921565 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
22921514 ATTTTTATTT
*
22921524 TATAAAAATTTAAA-ATATA
1 TATAAAAA-CTAAATATATA
22921543 TATAAAAACTAAATATATA
1 TATAAAAACTAAATATATA
22921562 TATA
1 TATA
22921566 TAATTCGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TATAAAAACTAAATATATA
Found at i:22925180 original size:30 final size:32
Alignment explanation
Indices: 22925124--22925195 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 32
22925114 CAAATGTAAA
*
22925124 ATATAA-TTT-TTAAATTTTTATCAAATT-TAT
1 ATATAATTTTATTAAAATTTTA-CAAATTGTAT
22925154 ATATAATTTTATTAAAATTTTA-AAATTGTAT
1 ATATAATTTTATTAAAATTTTACAAATTGTAT
22925185 -TAT--TTTTATTA
1 ATATAATTTTATTA
22925196 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
28 8 0.21
30 14 0.37
31 6 0.16
32 10 0.26
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (32 bp):
ATATAATTTTATTAAAATTTTACAAATTGTAT
Found at i:22929802 original size:3 final size:3
Alignment explanation
Indices: 22929789--22929830 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
22929779 ATTATGAGAT
* *
22929789 ATA ATA GTA ATA ATA ATA ATA ATA A-A ATA AT- ATT ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22929831 TAATTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:22945488 original size:24 final size:23
Alignment explanation
Indices: 22945441--22945503 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
22945431 AGTAAATTTG
* *
22945441 ATAATTTAAAATATGATATCATAAT
1 ATAA-TTAAAA-ATGATATAATAAA
22945466 ATAATTAAAAATGATATAAATAAA
1 ATAATTAAAAATGATAT-AATAAA
* *
22945490 AAAAATAAAAATGA
1 ATAATTAAAAATGA
22945504 CATCATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 7 0.21
24 22 0.67
25 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAATTAAAAATGATATAATAAA
Found at i:22945559 original size:22 final size:21
Alignment explanation
Indices: 22945517--22945563 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
22945507 CATTTAAAAT
22945517 TTTAATAAAAATCATAAATAAA
1 TTTAATAAAAATCATAAAT-AA
*
22945539 TTTAATAAAAAAT-ATATATAA
1 TTTAAT-AAAAATCATAAATAA
22945560 TTTA
1 TTTA
22945564 TATTTTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAATAAAAATCATAAATAA
Found at i:22951694 original size:22 final size:22
Alignment explanation
Indices: 22951667--22951711 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22951657 AAAAGATAAA
22951667 GTAGAAACAAATCCATACCATG
1 GTAGAAACAAATCCATACCATG
22951689 GTAGAAACAAATCCATACCATG
1 GTAGAAACAAATCCATACCATG
22951711 G
1 G
22951712 AAACAATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (22 bp):
GTAGAAACAAATCCATACCATG
Found at i:22955081 original size:325 final size:317
Alignment explanation
Indices: 22954456--22955244 Score: 794
Period size: 325 Copynumber: 2.5 Consensus size: 317
22954446 TAACACTTAT
* * * * * * *
22954456 AATCTCATATCAGAAAGATGTGTAGATAATGAATGATATATATGTAGAGA-TATAATCTTAAACT
1 AATCTCACATCAAAAAGATGTGTGGATAAAGAATGATATATATATAAAGACT-TAATCTCAAACT
* * * * * * * *
22954520 TGTG-AGATACCTTTTGTGAGATAAAA-TCGTGAGAACTTTGGGTCAAAGTGAACAATACCTCAC
65 TGTGAAG-TAGCTTATGTGAGATAAAACT-GTGAGACCTTCGAGTCAAAATGGACAATACCTCGC
* * * * * **** * * *
22954583 AGGTTAGGTG-TAGGTCTTCACAAATGGTATCAGAACGGTCA-CTAGTC-AGCAACTGT-AGGAG
128 AAGTTGGGTGCGA-GTCTCCACAAATGGTATTAGAGTAATTATC-AGTCGA-CAACCGTGA-AAG
** * * *
22954644 TCACTAAGTGCTACACGGTGGGGTCATGAGAGTCACTAAGTGCTACACGATGATCTGGTGTGATC
189 TCACTAAGTGCTACACGAAGGGGTCATGAAAGTCACTAAATGCTACACGATGATCTGGTATGATC
* ** * *
22954709 TTAATCTTGTGGATGGACTCGACTTGATAAAGACGTCAAGCATTAAAGGTAGGAAGATTGTAACG
254 TTAATCATGTGGATAAACTCGACTTGACAAAGACATCAAGCATTAAAGGT--G--G--TGTAACG
22954774 -CTCTC
313 CCT-TC
*
22954779 AATCTCACATCAAAATGATGTGTGGAT-AAGAAATGATATATATATATAAAGA-TCTAATCTCAA
1 AATCTCACATCAAAAAGATGTGTGGATAAAG-AATG--ATATATATATAAAGACT-TAATCTCAA
* * * * * *
22954842 ACTTGTGAAGT-GTCTTATGTGGGATAAAATTGTGAGACTTTCGAGTCAAAGTGGATAATACTTC
62 ACTTGTGAAGTAG-CTTATGTGAGATAAAACTGTGAGACCTTCGAGTCAAAATGGACAATACCTC
*
22954906 GTAAGTTGGGTGC-AGGTCTCCACAAATGGTATTAGAGTAATTATCAGTCGACAACCGTGAAAGT
126 GCAAGTTGGGTGCGA-GTCTCCACAAATGGTATTAGAGTAATTATCAGTCGACAACCGTGAAAGT
*
22954970 CACTAAGTGCTACACGAAGGGGTCATGAAAGTCACTAAATGCTACACGAT-AGTTTGGTATGATC
190 CACTAAGTGCTACACGAAGGGGTCATGAAAGTCACTAAATGCTACACGATGA-TCTGGTATGATC
* *
22955034 TTGATCATGTGGATAAACTCGACTTGACAGAGACATCAAGCATTAAAGGTGGTGTAACGCCTTC
254 TTAATCATGTGGATAAACTCGACTTGACAAAGACATCAAGCATTAAAGGTGGTGTAACGCCTTC
* * *
22955098 AATCTCATATCAAAAAGATGTGTGGATAAAGAATGATATATATGTAGAGACTTAATCTCAAACTT
1 AATCTCACATCAAAAAGATGTGTGGATAAAGAATGATATATATATAAAGACTTAATCTCAAACTT
* * ** *
22955163 GTGAGGTAGCTTTTGTGAGATAACGCTGTGAGACCTTCGAGTCAAAATGGACAATACCTCGCAGG
66 GTGAAGTAGCTTATGTGAGATAAAACTGTGAGACCTTCGAGTCAAAATGGACAATACCTCGCAAG
22955228 TTGGGTGCGAGTCTCCA
131 TTGGGTGCGAGTCTCCA
22955245 TACAAGCTCA
Statistics
Matches: 389, Mismatches: 61, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
317 92 0.24
318 3 0.01
319 38 0.10
320 5 0.01
321 1 0.00
322 2 0.01
323 28 0.07
324 1 0.00
325 213 0.55
326 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (317 bp):
AATCTCACATCAAAAAGATGTGTGGATAAAGAATGATATATATATAAAGACTTAATCTCAAACTT
GTGAAGTAGCTTATGTGAGATAAAACTGTGAGACCTTCGAGTCAAAATGGACAATACCTCGCAAG
TTGGGTGCGAGTCTCCACAAATGGTATTAGAGTAATTATCAGTCGACAACCGTGAAAGTCACTAA
GTGCTACACGAAGGGGTCATGAAAGTCACTAAATGCTACACGATGATCTGGTATGATCTTAATCA
TGTGGATAAACTCGACTTGACAAAGACATCAAGCATTAAAGGTGGTGTAACGCCTTC
Found at i:22957092 original size:27 final size:27
Alignment explanation
Indices: 22957054--22957110 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
22957044 CCTAAATTAG
*
22957054 TTAACTTCTATTGTTCTGTATCCTTTA
1 TTAACTTCTATTATTCTGTATCCTTTA
22957081 TTAACTTCTATTATTCTGTATCCTTTA
1 TTAACTTCTATTATTCTGTATCCTTTA
22957108 TTA
1 TTA
22957111 GAATTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (27 bp):
TTAACTTCTATTATTCTGTATCCTTTA
Found at i:22957301 original size:2 final size:2
Alignment explanation
Indices: 22957289--22957344 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
22957279 TTCTAGCATC
* * *
22957289 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22957331 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
22957345 GCAAGAGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22981078 original size:2 final size:2
Alignment explanation
Indices: 22981071--22981104 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22981061 TTGAAGAGAT
22981071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22981105 AAGTCAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22982274 original size:12 final size:13
Alignment explanation
Indices: 22982257--22982299 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
22982247 TTAAATTTAA
22982257 ATATTTATATAT-
1 ATATTTATATATC
22982269 ATATTTATATATC
1 ATATTTATATATC
*
22982282 ATATCTTAT-TCTC
1 ATAT-TTATATATC
22982295 ATATT
1 ATATT
22982300 CTTTTAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 13 0.46
13 11 0.39
14 4 0.14
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTATATATC
Found at i:22984255 original size:13 final size:13
Alignment explanation
Indices: 22984237--22984266 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22984227 TTTGAATTTG
*
22984237 ATTTAATTTTTAA
1 ATTTAATATTTAA
22984250 ATTTAATATTTAA
1 ATTTAATATTTAA
22984263 ATTT
1 ATTT
22984267 GATTCGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTAATATTTAA
Found at i:22984414 original size:18 final size:19
Alignment explanation
Indices: 22984391--22984429 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
22984381 AAAATCTTTT
22984391 AAATATTATTTT-AATATA
1 AAATATTATTTTAAATATA
*
22984409 AAATATTTTTTTAAATATA
1 AAATATTATTTTAAATATA
22984428 AA
1 AA
22984430 TATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTATTTTAAATATA
Found at i:22984418 original size:28 final size:29
Alignment explanation
Indices: 22984362--22984417 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
22984352 GAAATGAATA
22984362 AAATATTAATTTTAAATATAAAATCTTTT
1 AAATATTAATTTTAAATATAAAATCTTTT
*
22984391 AAATATT-ATTTT-AATATAAAATATTTT
1 AAATATTAATTTTAAATATAAAATCTTTT
22984418 TTTAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
28 5 0.19
29 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
AAATATTAATTTTAAATATAAAATCTTTT
Found at i:22984419 original size:29 final size:30
Alignment explanation
Indices: 22984362--22984426 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
22984352 GAAATGAATA
22984362 AAATATTAATTTTAAATATAAAA-TCTTTT
1 AAATATTAATTTTAAATATAAAATTCTTTT
*
22984391 AAATATT-ATTTT-AATATAAAATATTTTTTT
1 AAATATTAATTTTAAATAT-AAA-ATTCTTTT
22984421 AAATAT
1 AAATAT
22984427 AAATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.16
28 8 0.25
29 8 0.25
30 11 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATATTAATTTTAAATATAAAATTCTTTT
Found at i:22984446 original size:16 final size:16
Alignment explanation
Indices: 22984425--22984469 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
22984415 TTTTTTAAAT
22984425 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
22984441 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
22984457 ATAAATAATAAAA
1 ATAAAT-ATAAAA
22984470 ATAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 22 0.79
17 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Found at i:22987484 original size:15 final size:16
Alignment explanation
Indices: 22987451--22987675 Score: 143
Period size: 16 Copynumber: 14.4 Consensus size: 16
22987441 TCGGATTATA
*
22987451 GGGTTTTGAATTTTAG
1 GGGTTTTGGATTTTAG
22987467 GGGTTTTGGATTTT-G
1 GGGTTTTGGATTTTAG
* *
22987482 GGG-TCTGGA-TTTAA
1 GGGTTTTGGATTTTAG
** *
22987496 AAG-TTAGGATTTTA-
1 GGGTTTTGGATTTTAG
22987510 GGGTTTTGGATTTTAAG
1 GGGTTTTGGATTTT-AG
* *
22987527 GGG-TTTAGA-TTTAA
1 GGGTTTTGGATTTTAG
*
22987541 GGGTTTAAAGG-TTTTA-
1 GGGTTT--TGGATTTTAG
22987557 GGGTTTTGGATTTTAAG
1 GGGTTTTGGATTTT-AG
* *
22987574 GGG-TTTAGA-TTTAA
1 GGGTTTTGGATTTTAG
*
22987588 GGGTTTAAAGG-TTTTA-
1 GGGTTT--TGGATTTTAG
22987604 GGGTTTTGGATTTTAG
1 GGGTTTTGGATTTTAG
*
22987620 GGGGTTTGGATTTTAG
1 GGGTTTTGGATTTTAG
* *
22987636 GGATTTTAGATTTTAG
1 GGGTTTTGGATTTTAG
* *
22987652 AAGATTTTGGATTTTAG
1 -GGGTTTTGGATTTTAG
22987669 GGGTTTT
1 GGGTTTT
22987676 AGAAACCTAG
Statistics
Matches: 162, Mismatches: 28, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
13 3 0.02
14 23 0.14
15 36 0.22
16 70 0.43
17 30 0.19
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (16 bp):
GGGTTTTGGATTTTAG
Found at i:22987548 original size:23 final size:23
Alignment explanation
Indices: 22987521--22987604 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
22987511 GGTTTTGGAT
*
22987521 TTTAAGGGGTTTAGATTTAAGGG
1 TTTAAAGGGTTTAGATTTAAGGG
* * * *
22987544 TTTAAAGGTTTTAGGGTTT-TGGAT
1 TTTAAAGGGTTTA-GATTTAAGG-G
*
22987568 TTTAAGGGGTTTAGATTTAAGGG
1 TTTAAAGGGTTTAGATTTAAGGG
*
22987591 TTTAAAGGTTTTAG
1 TTTAAAGGGTTTAG
22987605 GGTTTTGGAT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
23 29 0.63
24 17 0.37
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (23 bp):
TTTAAAGGGTTTAGATTTAAGGG
Found at i:22987551 original size:24 final size:24
Alignment explanation
Indices: 22987524--22987598 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
22987514 TTTGGATTTT
22987524 AAGGGGTTTAGATTTAAGGGTTTA
1 AAGGGGTTTAGATTTAAGGGTTTA
* * * * *
22987548 AA-GGTTTTAGGGTTT-TGGATTTT
1 AAGGGGTTTA-GATTTAAGGGTTTA
22987571 AAGGGGTTTAGATTTAAGGGTTTA
1 AAGGGGTTTAGATTTAAGGGTTTA
22987595 AAGG
1 AAGG
22987599 TTTTAGGGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
23 17 0.45
24 21 0.55
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (24 bp):
AAGGGGTTTAGATTTAAGGGTTTA
Found at i:22987565 original size:47 final size:47
Alignment explanation
Indices: 22987505--22987674 Score: 245
Period size: 47 Copynumber: 3.6 Consensus size: 47
22987495 AAAGTTAGGA
22987505 TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGGTTTAAAGG
1 TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGGTTTAAAGG
22987552 TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGGTTTAAAGG
1 TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGGTTTAAAGG
* * * * *
22987599 TTTTAGGGTTTTGGATTTTAGGGGGTTTGGATTTTAGGGATTT-TAGA
1 TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGG-TTTAAAGG
*
22987646 TTTTAGAAGATTTTGGATTTT-AGGGGTTT
1 TTTTAG--GGTTTTGGATTTTAAGGGGTTT
22987675 TAGAAACCTA
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
47 91 0.81
48 10 0.09
49 12 0.11
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (47 bp):
TTTTAGGGTTTTGGATTTTAAGGGGTTTAGATTTAAGGGTTTAAAGG
Found at i:22987664 original size:33 final size:31
Alignment explanation
Indices: 22987443--22987678 Score: 116
Period size: 31 Copynumber: 7.6 Consensus size: 31
22987433 TTGAAGATTC
* *
22987443 GGATTATAGGGTTTT-GAATTTTAG-GGGTTTT
1 GGATTTTAGGGTTTTAG-ATTTTAGAGAG-TTT
* * * * *
22987474 GGATTTT-GGGGTCTGGA-TTTA-AAAGTTA
1 GGATTTTAGGGTTTTAGATTTTAGAGAGTTT
* *
22987502 GGATTTTAGGGTTTTGGATTTTA-AGGGGTTT
1 GGATTTTAGGGTTTTAGATTTTAGA-GAGTTT
* * * *
22987533 AGATTTAAGGGTTTAAAGGTTTTAG-G-GTTTT
1 GGATTTTAGGGTTT-TAGATTTTAGAGAG-TTT
* *
22987564 GGATTTTAAGGGGTTTAGA-TTTA-AGGGTTT
1 GGATTTT-AGGGTTTTAGATTTTAGAGAGTTT
* * *
22987594 AAAGG-TTTTAGGGTTTTGGATTTTAGGGGGTTT
1 ---GGATTTTAGGGTTTTAGATTTTAGAGAGTTT
*
22987627 GGATTTTAGGGATTTTAGATTTTAGAAGATTTT
1 GGATTTTAGGG-TTTTAGATTTTAG-AGAGTTT
22987660 GGATTTTAGGGGTTTTAGA
1 GGATTTTA-GGGTTTTAGA
22987679 AACCTAGGAT
Statistics
Matches: 157, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
28 9 0.06
29 13 0.08
30 22 0.14
31 51 0.32
32 32 0.20
33 27 0.17
34 3 0.02
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.45
Consensus pattern (31 bp):
GGATTTTAGGGTTTTAGATTTTAGAGAGTTT
Found at i:22989271 original size:20 final size:18
Alignment explanation
Indices: 22989229--22989273 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22989219 TTTTCTCTTT
* *
22989229 TTTTTTTTTTAATAATTA
1 TTTTATTTTTAAAAATTA
22989247 TTTTATTTTTAAAAATATA
1 TTTTATTTTTAAAAAT-TA
22989266 TATTTATT
1 T-TTTATT
22989274 ATTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
20 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTTTAAAAATTA
Found at i:23009530 original size:15 final size:16
Alignment explanation
Indices: 23009510--23009542 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23009500 TTTGGACATT
23009510 AAAAAAAAATGA-ACA
1 AAAAAAAAATGAGACA
*
23009525 AAAAAAAGATGAGACA
1 AAAAAAAAATGAGACA
23009541 AA
1 AA
23009543 GAAATAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAAAAATGAGACA
Found at i:23016582 original size:27 final size:26
Alignment explanation
Indices: 23016533--23016595 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
23016523 ACCTTAGTAG
* *
23016533 ATAAGATTATAATAGAATAAGATCAA
1 ATAATATTATAATAAAATAAGATCAA
* * *
23016559 ATGATATTATGAATAAAATTAGATTAA
1 ATAATATTAT-AATAAAATAAGATCAA
23016586 ATAATATTAT
1 ATAATATTAT
23016596 TTTATCTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAGATCAA
Found at i:23016738 original size:26 final size:28
Alignment explanation
Indices: 23016693--23016745 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
23016683 TAAATTATTG
23016693 ATATAATTTTTAATAATAT-AATTAAAC
1 ATATAATTTTTAATAATATAAATTAAAC
**
23016720 ATATAA-TTTTAATTTTATAAATTAAA
1 ATATAATTTTTAATAATATAAATTAAA
23016746 AATAATCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATAATTTTTAATAATATAAATTAAAC
Found at i:23021000 original size:15 final size:17
Alignment explanation
Indices: 23020982--23021013 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23020972 TTAGATTTGA
23020982 ATTTTTT-T-TATTTCT
1 ATTTTTTATATATTTCT
23020997 ATTTTTTATATATTTCT
1 ATTTTTTATATATTTCT
23021014 TTAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTTATATATTTCT
Found at i:23022221 original size:16 final size:15
Alignment explanation
Indices: 23022192--23022224 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
23022182 TAAATATAAA
23022192 TAAAATTATAAATAT
1 TAAAATTATAAATAT
23022207 TAAAATTATTAAATAT
1 TAAAATTA-TAAATAT
23022223 TA
1 TA
23022225 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTATAAATAT
Found at i:23027994 original size:3 final size:3
Alignment explanation
Indices: 23027979--23028013 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
23027969 AAGGAAAAGG
*
23027979 AGA AGA A-A GGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
23028014 GTGCCTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 28 0.97
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23031940 original size:20 final size:22
Alignment explanation
Indices: 23031887--23031937 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
23031877 ATTTAATATA
* *
23031887 AATTTTTAATCAAAATTATAAT
1 AATTTTTAATTACAATTATAAT
23031909 AATTTTTAATTACAATTA-AAT
1 AATTTTTAATTACAATTATAAT
23031930 AATTTTTA
1 AATTTTTA
23031938 TTATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTTTAATTACAATTATAAT
Found at i:23036551 original size:123 final size:122
Alignment explanation
Indices: 23036321--23036563 Score: 416
Period size: 123 Copynumber: 2.0 Consensus size: 122
23036311 CAAGCGGAGA
*
23036321 ATAAAATATGAGTAAATCATGACACAAATCATAAGTAATTAACCATAACACAGTAAGCTAAATCA
1 ATAAAATATGAGTAAATCATGACACAAATCATAAGTAATTAACCATAACACAGTAAACTAAATCA
23036386 AGCATCCAAAATCCAATTCAAAAGAACGAACATAACAAAATTGAATATCTCAAAAGC
66 AGCATCCAAAATCCAATTCAAAAGAACGAACATAACAAAATTGAATATCTCAAAAGC
* *
23036443 ATAAAATATGAGTAAATTATGACACAAATCA-AAGTAATTAACCATAACATAGTAAACTAAATCA
1 ATAAAATATGAGTAAATCATGACACAAATCATAAGTAATTAACCATAACACAGTAAACTAAATCA
* *
23036507 AGCATATTCAAAATCCAATTCAAAAGAACGAACATAGCAAAATTGAATATCTCAAAA
66 AGC--ATCCAAAATCCAATTCAAAAGAACGAACATAACAAAATTGAATATCTCAAAA
23036564 AGGACCTGCC
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
121 34 0.30
122 30 0.26
123 50 0.44
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (122 bp):
ATAAAATATGAGTAAATCATGACACAAATCATAAGTAATTAACCATAACACAGTAAACTAAATCA
AGCATCCAAAATCCAATTCAAAAGAACGAACATAACAAAATTGAATATCTCAAAAGC
Found at i:23039003 original size:24 final size:24
Alignment explanation
Indices: 23038973--23039051 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
23038963 ATTTTCTAAC
23038973 AAAAAATGTTTTAAATAATCTTAA
1 AAAAAATGTTTTAAATAATCTTAA
* *
23038997 AAAAAATCTTATAAATAATTCTTAA
1 AAAAAATGTTTTAAATAA-TCTTAA
* * *
23039022 AAGAAACGTCTTAAATAATCTTAA
1 AAAAAATGTTTTAAATAATCTTAA
23039046 AAAAAA
1 AAAAAA
23039052 ATCTTATAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 27 0.59
25 19 0.41
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAATGTTTTAAATAATCTTAA
Found at i:23039019 original size:25 final size:24
Alignment explanation
Indices: 23038973--23039059 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 24
23038963 ATTTTCTAAC
* *
23038973 AAAAAATGTTTTAAATAATCTTAA
1 AAAAAATCTTATAAATAATCTTAA
23038997 AAAAAATCTTATAAATAATTCTTAA
1 AAAAAATCTTATAAATAA-TCTTAA
*
23039022 AAGAAA-CGTCT-TAAATAATCTTAAA
1 AAAAAATC-T-TATAAATAATCTT-AA
23039047 AAAAAATCTTATA
1 AAAAAATCTTATA
23039060 GGAACTCTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
24 22 0.42
25 29 0.55
26 2 0.04
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAAAATCTTATAAATAATCTTAA
Found at i:23039207 original size:43 final size:43
Alignment explanation
Indices: 23039152--23039237 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
23039142 AGCTACTTTA
*
23039152 ATTTTTTAATATTTTATTTTTTAAATCTTATAAATAATGAAAT
1 ATTTTTTAATATTTTATTTTTTAAATCTTATAAATAATAAAAT
* *
23039195 ATTTTTTTATATTTTATTTTTTAAATCTTATAAGTAATAAAAT
1 ATTTTTTAATATTTTATTTTTTAAATCTTATAAATAATAAAAT
23039238 GGATTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (43 bp):
ATTTTTTAATATTTTATTTTTTAAATCTTATAAATAATAAAAT
Found at i:23053413 original size:88 final size:86
Alignment explanation
Indices: 23053321--23053555 Score: 224
Period size: 88 Copynumber: 2.7 Consensus size: 86
23053311 GACCCATTGG
* * * *
23053321 TTTTTCATGGGCTTTTTTGTTTTGA-TTCAGAGTAGGCCCAAAATTAGAAATAGACTTTGGTTTT
1 TTTTTCATGGGCTTTTATGTTTT-ATTTCAGAATAGGCCCAAAATT-CAAATAAACTTTGG-TTT
23053385 TCACGGCCTGCTTATGACCCAATA
63 TCACGGCCTGCTTATGACCCAATA
* * *
23053409 TTTTTCTTGGGCTTTTATGTTTTATTTTAGAATAGGCCCAAAATTCATATAAACTTTGGTTTTCA
1 TTTTTCATGGGCTTTTATGTTTTATTTCAGAATAGGCCCAAAATTCAAATAAACTTTGGTTTTCA
* ** * *
23053474 TGGCCTAATCGGATATGATCCATTGA
66 CGGCC---T-GCTTATGACCCAAT-A
* * *
23053500 TTTTT-AT-GGCTTTTAGGTTTTATTTCATAAATAGGCCCAAAATTGAACATAAACTT
1 TTTTTCATGGGCTTTTATGTTTTATTTCA-GAATAGGCCCAAAATTCAA-ATAAACTT
23053556 CAGTATTACA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
86 10 0.08
87 12 0.10
88 39 0.32
89 19 0.16
90 27 0.22
91 14 0.12
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (86 bp):
TTTTTCATGGGCTTTTATGTTTTATTTCAGAATAGGCCCAAAATTCAAATAAACTTTGGTTTTCA
CGGCCTGCTTATGACCCAATA
Found at i:23053628 original size:183 final size:183
Alignment explanation
Indices: 23053416--23054108 Score: 652
Period size: 183 Copynumber: 3.8 Consensus size: 183
23053406 ATATTTTTCT
* * * * *
23053416 TGGGCTTTTATGTTTTATTTTAGAATAGGCCCAAAATT-CATATAAACTTTGGTTTTCATGGCCT
1 TGGGCTTTTAGGTTTTATTTCAGAATAGGCCCAAAATTGGAAATAAACTTCGGTTTTCATGGCCT
*
23053480 -AATCGGATATGATCCATTGATTTTTAT-GGCTTTTAGGTTTTATTTCATAAATAGGCCCAAAAT
66 GAATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTT-TTTCATAAATAGGCCCAAAAT
* * * *
23053543 T-GAACATAAACTTCAGTATTACATGGCAGGATGGGATATAACCCATTGATTTTTCA
130 TAGAAAATAAACTTCA-TATT-CATGGCAGGATCGGATATGACCCGTTGATTTTT-A
*
23053599 TGGGCTTTT-GGTTTTATTTCAGAAATAGGCCCCAAATTGAGTACAA-AAA-TTCGGTTTTTCAT
1 TGGGCTTTTAGGTTTTATTTCAG-AATAGGCCCAAAATTG-G-A-AATAAACTTCGG-TTTTCAT
* * * * * * *
23053661 GG-TTGGATCGGATATGACCCATTGATTTTTTAATGGGCTTGTAGGGTTTTTT-AGAAATATGTC
61 GGCCTGAATCGGATATGACCCATTGA-TTTTT-ATGGGCTTTTAGGTTTTTTTCATAAATAGGCC
* * * * **
23053724 CAAAATTGGAAAAAAAACTTCAAATTTTCATGGCCGGATCCAATATGACCCGTTGATTTTTA
124 CAAAATTAGAAAATAAACTTC--ATATTCATGGCAGGATCGGATATGACCCGTTGATTTTTA
* *
23053786 TGGGCTTCTAGGTTTTATTTCAGAATAGGCCC-AAATTGGAAATAAACTTCGATTTTTCATGGCC
1 TGGGCTTTTAGGTTTTATTTCAGAATAGGCCCAAAATTGGAAATAAACTTCG-GTTTTCATGGCC
* ** * * * *
23053850 -GGATCCAATATGACCCATTGATTTTTATGGGCTTTT-GGTTTTGTTTAAAAAATAAGACCAAAA
65 TGAATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTT-TTTCATAAATAGGCCCAAAA
*
23053913 TTAG-AAATAAACTTCGATTATTCATGGCCA-GATTGGATATGACCCGTT-ATTTTTA
129 TTAGAAAATAAACTTC-A-TATTCATGG-CAGGATCGGATATGACCCGTTGATTTTTA
* * * * * **
23053968 TGGGCTTTTAGGTTTTGTTTCTGAAATAGACCCAAAATTGTAAATAAATTTCAATTTTTCATGGC
1 TGGGCTTTTAGGTTTTATTTCAG-AATAGGCCCAAAATTGGAAATAAACTTC-GGTTTTCATGGC
* * * *
23054033 CTGATTGGGATA-G-CCCATTGATTTTTATTGGCTTTTAGG-TTTTTTC-TGAAATAGACCCAAA
64 CTGAATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTTTTCAT-AAATAGGCCCAAA
23054094 ATT-GAAAATAAACTT
128 ATTAGAAAATAAACTT
23054109 TCGGGTTGGG
Statistics
Matches: 422, Mismatches: 59, Indels: 59
0.78 0.11 0.11
Matches are distributed among these distances:
181 1 0.00
182 70 0.17
183 103 0.24
184 57 0.14
185 43 0.10
186 37 0.09
187 39 0.09
188 56 0.13
189 15 0.04
190 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (183 bp):
TGGGCTTTTAGGTTTTATTTCAGAATAGGCCCAAAATTGGAAATAAACTTCGGTTTTCATGGCCT
GAATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTTTTCATAAATAGGCCCAAAATT
AGAAAATAAACTTCATATTCATGGCAGGATCGGATATGACCCGTTGATTTTTA
Found at i:23053850 original size:91 final size:92
Alignment explanation
Indices: 23053294--23054108 Score: 695
Period size: 92 Copynumber: 8.9 Consensus size: 92
23053284 CGGGTCCTGG
* ** *
23053294 ATGGCCGGATCGGATATGACCCATTGGTTTTTCATGGGCTTTTTTGTTTTGA-TTCAGAGTAGGC
1 ATGGCCGGATCGGATATGACCCATTGATTTTT-ATGGGCTTTTAGGTTTT-ATTTCAGAATAGGC
* * * *
23053358 CCAAAATTAGAAATAGACTTTGGTTTTTC
64 CCAAAATTGGAAATAAACTTCGATTTTTC
* ** * * * *
23053387 ACGGCC---T-GCTTATGACCCAAT-ATTTTTCTTGGGCTTTTATGTTTTATTTTAGAATAGGCC
1 ATGGCCGGATCGGATATGACCCATTGATTTTT-ATGGGCTTTTAGGTTTTATTTCAGAATAGGCC
* * * *
23053447 CAAAATT-CATATAAACTTTG-GTTTTC
65 CAAAATTGGAAATAAACTTCGATTTTTC
** * *
23053473 ATGGCCTAATCGGATATGATCCATTGATTTTTAT-GGCTTTTAGGTTTTATTTCATAAATAGGCC
1 ATGGCCGGATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTTCA-GAATAGGCC
* *
23053537 CAAAATT-GAACATAAACTTC-AGTATTAC
65 CAAAATTGGAA-ATAAACTTCGA-TTTTTC
* * *
23053565 ATGGCAGGATGGGATATAACCCATTGATTTTTCATGGGCTTTT-GGTTTTATTTCAGAAATAGGC
1 ATGGCCGGATCGGATATGACCCATTGATTTTT-ATGGGCTTTTAGGTTTTATTTCAG-AATAGGC
* *
23053629 CCCAAATTGAGTACAA-AAA-TTCGGTTTTTC
64 CCAAAATTG-G-A-AATAAACTTCGATTTTTC
** * * *
23053659 ATGGTTGGATCGGATATGACCCATTGATTTTTTAATGGGCTTGTAGGGTTT-TTT-AGAAATATG
1 ATGGCCGGATCGGATATGACCCATTGA-TTTTT-ATGGGCTTTTAGGTTTTATTTCAG-AATAGG
* * * *
23053722 TCCAAAATTGGAAAAAAAACTTCAAATTTTC
63 CCCAAAATTGG-AAATAAACTTCGATTTTTC
** * *
23053753 ATGGCCGGATCCAATATGACCCGTTGATTTTTATGGGCTTCTAGGTTTTATTTCAGAATAGGCCC
1 ATGGCCGGATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTTCAGAATAGGCCC
23053818 -AAATTGGAAATAAACTTCGATTTTTC
66 AAAATTGGAAATAAACTTCGATTTTTC
** * * * * *
23053844 ATGGCCGGATCCAATATGACCCATTGATTTTTATGGGCTTTT-GGTTTTGTTTAAAAAATAAGAC
1 ATGGCCGGATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTT-CAGAATAGGCC
* *
23053908 CAAAATTAGAAATAAACTTCGATTATTC
65 CAAAATTGGAAATAAACTTCGATTTTTC
* * * * * *
23053936 ATGGCCAGATTGGATATGACCCGTT-ATTTTTATGGGCTTTTAGGTTTTGTTTCTGAAATAGACC
1 ATGGCCGGATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTTCAG-AATAGGCC
* * *
23054000 CAAAATTGTAAATAAATTTCAATTTTTC
65 CAAAATTGGAAATAAACTTCGATTTTTC
* * * * *
23054028 ATGGCCTGATTGGGATA-G-CCCATTGATTTTTATTGGCTTTTAGG-TTT-TTTCTGAAATAGAC
1 ATGGCCGGA-TCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTTCAG-AATAGGC
*
23054089 CCAAAATTGAAAATAAACTT
64 CCAAAATTGGAAATAAACTT
23054109 TCGGGTTGGG
Statistics
Matches: 596, Mismatches: 96, Indels: 63
0.79 0.13 0.08
Matches are distributed among these distances:
86 10 0.02
87 11 0.02
88 39 0.07
89 30 0.05
90 69 0.12
91 102 0.17
92 162 0.27
93 59 0.10
94 85 0.14
95 21 0.04
96 7 0.01
97 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (92 bp):
ATGGCCGGATCGGATATGACCCATTGATTTTTATGGGCTTTTAGGTTTTATTTCAGAATAGGCCC
AAAATTGGAAATAAACTTCGATTTTTC
Found at i:23057507 original size:30 final size:30
Alignment explanation
Indices: 23057473--23057551 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
23057463 GGGTTTTAGG
* *
23057473 TACAAATTAAAGATTAATGGC-TGATTTGAA
1 TACAAATTAAAGATTAAAGACTTG-TTTGAA
23057503 TACAAATTAAAGATTAAAGACTTGTTTGAA
1 TACAAATTAAAGATTAAAGACTTGTTTGAA
*
23057533 TACGAATTAAA-ATTTAAAG
1 TACAAATTAAAGA-TTAAAG
23057552 GTTTATTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.93
31 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (30 bp):
TACAAATTAAAGATTAAAGACTTGTTTGAA
Found at i:23065707 original size:20 final size:22
Alignment explanation
Indices: 23065669--23065708 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
23065659 TATATTTATT
23065669 AAATATAAATAAAAATAAAAGC
1 AAATATAAATAAAAATAAAAGC
*
23065691 AAAT-TAAA-AAAAGTAAAA
1 AAATATAAATAAAAATAAAA
23065709 AAGCATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (22 bp):
AAATATAAATAAAAATAAAAGC
Found at i:23067172 original size:23 final size:24
Alignment explanation
Indices: 23067128--23067173 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23067118 TAGGTGTGAC
23067128 TATTTTATATTTAAAATCTCATTT
1 TATTTTATATTTAAAATCTCATTT
* *
23067152 TATTTTTTATTT-TAATCTCATT
1 TATTTTATATTTAAAATCTCATT
23067174 ATTAACGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTATATTTAAAATCTCATTT
Found at i:23067413 original size:22 final size:22
Alignment explanation
Indices: 23067387--23067428 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23067377 ATGATTTTCA
23067387 GGTTTTAAATTTTAGGGTTTGG
1 GGTTTTAAATTTTAGGGTTTGG
*
23067409 GGTTTTAGATTTTAGGGTTT
1 GGTTTTAAATTTTAGGGTTT
23067429 TAGAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (22 bp):
GGTTTTAAATTTTAGGGTTTGG
Found at i:23067414 original size:15 final size:15
Alignment explanation
Indices: 23067396--23067511 Score: 56
Period size: 15 Copynumber: 7.7 Consensus size: 15
23067386 AGGTTTTAAA
* *
23067396 TTTTAGGGTTTGGGG
1 TTTTAGAGTTTAGGG
*
23067411 TTTTAGATTTTAGGG
1 TTTTAGAGTTTAGGG
* *
23067426 TTTTAGAATTTTAAGG
1 TTTTAG-AGTTTAGGG
* * *
23067442 TTTTGGAGGTCTATGG
1 TTTTAGA-GTTTAGGG
* * * *
23067458 TTTTGGGGTTTAAGA
1 TTTTAGAGTTTAGGG
*
23067473 TTTT-GAATTTAGGG
1 TTTTAGAGTTTAGGG
* * *
23067487 TTTTGGAGTTTTGGA
1 TTTTAGAGTTTAGGG
23067502 TTTT-GAGTTT
1 TTTTAGAGTTT
23067512 TAGCATTTTG
Statistics
Matches: 79, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
14 16 0.20
15 39 0.49
16 24 0.30
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (15 bp):
TTTTAGAGTTTAGGG
Found at i:23067438 original size:16 final size:15
Alignment explanation
Indices: 23067408--23067445 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
23067398 TTAGGGTTTG
23067408 GGGTTTTAGATTTTA
1 GGGTTTTAGATTTTA
23067423 GGGTTTTAGAATTTTA
1 GGGTTTTAG-ATTTTA
*
23067439 AGGTTTT
1 GGGTTTT
23067446 GGAGGTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (15 bp):
GGGTTTTAGATTTTA
Found at i:23067519 original size:15 final size:15
Alignment explanation
Indices: 23067487--23067542 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
23067477 GAATTTAGGG
*
23067487 TTTTGGAGTTTT-GGA
1 TTTT-GAGTTTTAGCA
23067502 TTTTGAGTTTTAGCA
1 TTTTGAGTTTTAGCA
* *
23067517 TTTTGAATTTTAGCG
1 TTTTGAGTTTTAGCA
23067532 TTTTGAAGTTT
1 TTTTG-AGTTT
23067543 ATGGTTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.20
15 24 0.69
16 4 0.11
ACGTcount: A:0.18, C:0.04, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTTGAGTTTTAGCA
Found at i:23067543 original size:15 final size:15
Alignment explanation
Indices: 23067473--23067543 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
23067463 GGGTTTAAGA
*
23067473 TTTTGAA-TTTAGGG
1 TTTTGAAGTTTAGCG
* *
23067487 TTTTGGAGTTTTG-G
1 TTTTGAAGTTTAGCG
*
23067501 ATTTTG-AGTTTTAGCA
1 -TTTTGAAG-TTTAGCG
*
23067517 TTTTGAATTTTAGCG
1 TTTTGAAGTTTAGCG
23067532 TTTTGAAGTTTA
1 TTTTGAAGTTTA
23067544 TGGTTTGAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.24, T:0.54
Consensus pattern (15 bp):
TTTTGAAGTTTAGCG
Found at i:23067549 original size:15 final size:15
Alignment explanation
Indices: 23067419--23067553 Score: 57
Period size: 15 Copynumber: 9.0 Consensus size: 15
23067409 GGTTTTAGAT
* *
23067419 TTTAGGGTTTTAGAAT
1 TTTATGGTTTT-GAAG
* *
23067435 TTTAAGGTTTTGGAGG
1 TTTATGGTTTT-GAAG
* **
23067451 TCTATGGTTTTGGGG
1 TTTATGGTTTTGAAG
* *
23067466 TTTAAGATTTTGAA-
1 TTTATGGTTTTGAAG
* *
23067480 TTTAGGGTTTTGGAG
1 TTTATGGTTTTGAAG
23067495 TTT-TGGATTTTG-AG
1 TTTATGG-TTTTGAAG
* *
23067509 TTT-TAGCATTTTGAAT
1 TTTAT-G-GTTTTGAAG
23067525 TTTA-GCGTTTTGAAG
1 TTTATG-GTTTTGAAG
23067540 TTTATGG-TTTGAAG
1 TTTATGGTTTTGAAG
23067554 GTTTTTAGGG
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
14 26 0.28
15 40 0.43
16 26 0.28
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTATGGTTTTGAAG
Found at i:23067561 original size:32 final size:32
Alignment explanation
Indices: 23067524--23067589 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
23067514 GCATTTTGAA
* *
23067524 TTTTAGCGTTTT-GAAGTTTATGGTTTGAAGGT
1 TTTTAGCGTTTTAG-AGTTTAAGGTTTCAAGGT
* *
23067556 TTTTAGGGTTTTAGGGTTTAAGGTTTCAAGGT
1 TTTTAGCGTTTTAGAGTTTAAGGTTTCAAGGT
23067588 TT
1 TT
23067590 CAAAGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.50
Consensus pattern (32 bp):
TTTTAGCGTTTTAGAGTTTAAGGTTTCAAGGT
Found at i:23067613 original size:15 final size:15
Alignment explanation
Indices: 23067562--23067619 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
23067552 AGGTTTTTAG
* *
23067562 GGTTTTAGGGTTTAA
1 GGTTTTAAGGTTTCA
*
23067577 GGTTTCAAGGTTTCAA
1 GGTTTTAAGGTTTC-A
* *
23067593 AG-TTTAGGGTTTCA
1 GGTTTTAAGGTTTCA
23067607 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
23067620 GGAAGGTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (15 bp):
GGTTTTAAGGTTTCA
Done.